RetrogeneDB ID: retro_nleu_2909

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397479.1:618751..619813(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: SRP72
• Ensembl ID: ENSNLEG00000008806
• Aliases: None
• Description: None

Sequence

>retro_nleu_2909
ATGGCGAGCGGTGGCAGAGGGGGGGTGTCAGTGCCTGCGCTGTGGAGTGAACGGTATGGCCAGAACGGCGACTTCACGCG
CGCTCTCAAGACCGTCAGTAAGATACTACAGATCAACAAAGATGACGTAACTGCCCTGCATTGTAAAGTGGTATGCCTTA
TCCAGAATGCAAGTTTCAAGGAAGCTTTGAATGTCATCAATACTCACACCAAAGTGTTAGCCAATAACTCTCTCTCCTTT
GAAAAGGCATATTGCGAGTACAGGCTGAACAGAATTGAGAATGCCTTGAAGACAATCGAAAGTGCCAACCAGCAGACAGA
CAAACTGAAGGAGCTTTATGGACAAGTGTTATACCGTTTGGAACGCTATGATGAATGCTTAGCAGTATATGGAGATCTCG
TCCGAAACTCCCAAGATGATTATGATGAAGAGAGGAAAACAAACCTTTCAGCAGTTCTTGCAGCTCAAAGCAATTGGGAA
AAAGTGGTTCCAGAGAACTTGGGCCTGCAAGAAGGCACACATGAGCTGTGCTACAACACTGCATGTGCACTGATAGGCCA
AGGCCAGCTGAACCAGGCCATGAAAATCCTACAGAAAGCTGAAGATCTTTGCCGCCGATCATTATCAGAAGACACTGATG
GGACTGAGAAAGACCCACAGGCAGAATTGGCCATCATTCATGGTCAGATGGCTTATATTCTGCAGCTTCAGGGTCGAACA
GAGGAGGCTTTGCAACTTTACAATCAAATAATAAAACTAAAACCAACAGATGTGGGATTACTAGCTGTAATTGCAAATAA
CATCATTACCATTAACAAGGACCAAAATGTCTTTGACTCCAAGAAGAAAGTGAAATTAACCAATGTGGAAGGAGTAGAGT
TTAAACTTTCCAAGAAACAACTACAAGCTATAGAATTTAACAAAGCTTTACTTGCTATGTACACAAACCAGGCTGAACAA
TGCCGCAAAATATCTGCCAGTTTACAGTCCCAAAGTCCCGAGCATCTCTTACCTGTGTTAATCCAAGCTGCCCAGCTCTG
CCGTGAAAAGCAGCACACAAAA

Alignment

ORF - retro_nleu_2909 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.61 %
• Parental protein coverage: 52.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASGGSGGVSVPALWSEVNRYGQNGDFTRALKTVNKILQINKDDVTALHCKVVCLIQNASFKEALNVINT
          MASGG.GGVSVPALWSE..RYGQNGDFTRALKTV.KILQINKDDVTALHCKVVCLIQNASFKEALNVINT
Retrocopy MASGGRGGVSVPALWSE--RYGQNGDFTRALKTVSKILQINKDDVTALHCKVVCLIQNASFKEALNVINT

Parental  HTKVLANNSLSFEKAYCEYRLNRIENALKTIESANQQTDKLKELYGQVLYRLERYDECLAVYRDLVRNSQ
          HTKVLANNSLSFEKAYCEYRLNRIENALKTIESANQQTDKLKELYGQVLYRLERYDECLAVY.DLVRNSQ
Retrocopy HTKVLANNSLSFEKAYCEYRLNRIENALKTIESANQQTDKLKELYGQVLYRLERYDECLAVYGDLVRNSQ

Parental  DDYDEERKTNLSAVVAAQSNWEKVVPENLGLQEGTHELCYNTACALIGQGQLNQAMKILQKAEDLCRRSL
          DDYDEERKTNLSAV.AAQSNWEKVVPENLGLQEGTHELCYNTACALIGQGQLNQAMKILQKAEDLCRRSL
Retrocopy DDYDEERKTNLSAVLAAQSNWEKVVPENLGLQEGTHELCYNTACALIGQGQLNQAMKILQKAEDLCRRSL

Parental  SEDTDGTEEDPQAELAIIHGQMAYILQLQGRTEEALQLYNQIIKLKPTDVGLLAVIANNIITINKDQNVF
          SEDTDGTE.DPQAELAIIHGQMAYILQLQGRTEEALQLYNQIIKLKPTDVGLLAVIANNIITINKDQNVF
Retrocopy SEDTDGTEKDPQAELAIIHGQMAYILQLQGRTEEALQLYNQIIKLKPTDVGLLAVIANNIITINKDQNVF

Parental  DSKKKVKLTNAEGVEFKLSKKQLQAIEFNKALLAMYTNQWADC--LSSSVRDHPEQHGETLSLHGARDCL
          DSKKKVKLTN.EGVEFKLSKKQLQAIEFNKALLAMYTNQ...C...S.S.......H........A..C.
Retrocopy DSKKKVKLTNVEGVEFKLSKKQLQAIEFNKALLAMYTNQAEQCRKISASLQSQSPEHLLPVLIQAAQLCR

Parental  QKEKKK
          .K...K
Retrocopy EKQHTK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_2909 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017998	1 retrocopy	retro_cjac_2538,
Homo sapiens	ENSG00000174780	2 retrocopies	retro_hsap_1939, retro_hsap_3685,
Nomascus leucogenys	ENSNLEG00000008806	1 retrocopy	retro_nleu_2909 ,
Oryctolagus cuniculus	ENSOCUG00000012226	1 retrocopy	retro_ocun_989,
Rattus norvegicus	ENSRNOG00000002100	1 retrocopy	retro_rnor_587,